Performance Portability Study of Linear Algebra Kernels in OpenCL

The performance portability of OpenCL kernel implementations for common memory bandwidth limited linear algebra operations across different hardware generations of the same vendor as well as across vendors is studied. Certain combinations of kernel implementations and work sizes are found to exhibit good performance across compute kernels, hardware generations, and, to a lesser degree, vendors. As a consequence, it is demonstrated that the optimization of a single kernel is often sufficient to obtain good performance for a large class of more complicated operations.Comment: 11 pages, 8 figures, 2 tables, International Workshop on OpenCL 201

NASA Docking System Block 1: NASA's New Direct Electric Docking System Supporting ISS and Future Human Space Exploration

The NASA Docking System (NDS) Block 1 is a key component of NASA's vision for space exploration. It is designed to provide capability for visiting vehicles to dock to the International Space Station's recently-installed International Docking Adapter ports. It is the first docking system to be developed by NASA since the Apollo-Soyuz Test Project of the 1970's. The NDS Block 1 includes provisions for capture, structural attachment, power/data transfer, and undocking. It uses a direct-drive electromechanical Stewart Platform capture system architecture, along with an innovative automated control scheme, to achieve an unprecedented level of performance and simplicity. Its design implements the new International Docking System Standard, which will be a key enabler of diverse and flexible exploration missions in future iterations. NDS qualification was completed in 2017 to support a planned first flight in 2018 on the Boeing CST-100 Starliner

Preparing sparse solvers for exascale computing.

Sparse solvers provide essential functionality for a wide variety of scientific applications. Highly parallel sparse solvers are essential for continuing advances in high-fidelity, multi-physics and multi-scale simulations, especially as we target exascale platforms. This paper describes the challenges, strategies and progress of the US Department of Energy Exascale Computing project towards providing sparse solvers for exascale computing platforms. We address the demands of systems with thousands of high-performance node devices where exposing concurrency, hiding latency and creating alternative algorithms become essential. The efforts described here are works in progress, highlighting current success and upcoming challenges. This article is part of a discussion meeting issue 'Numerical algorithms for high-performance computational science'

Binding of an antibody mimetic of the human low density lipoprotein receptor to apolipoprotein E is governed through electrostatic forces. Studies using site-directed mutagenesis and molecular modeling.

Monoclonal antibody 2E8 is specific for an epitope that coincides with the binding site of the low density lipoprotein receptor (LDLR) on human apoE. Its reactivity with apoE variants resembles that of the LDLR: it binds well with apoE3 and poorly with apoE2. The heavy chain complementarity-determining region (CDRH) 2 of 2E8 shows homology to the ligand-binding domain of the LDLR. To define better the structural basis of the 2E8/apoE interaction and particularly the role of electrostatic interactions, we generated and characterized a panel of 2E8 variants. Replacement of acidic residues in the 2E8 CDRHs showed that Asp52, Glu53, and Asp56 are essential for high-affinity binding. Although Asp31 (CDRH1), Glu58 (CDRH2), and Asp97 (CDRH3) did not appear to be critical, the Asp97 → Ala variant acquired reactivity with apoE2. A Thr57 → Glu substitution increased affinity for both apoE3 and apoE2. The affinities of wild-type 2E8 and variants for apoE varied inversely with ionic strength, suggesting that electrostatic forces contribute to both antigen binding and isoform specificity. We propose a model of the 2E8·apoE immune complex that is based on the 2E8 and apoE crystal structures and that is consistent with the apoE-binding properties of wild-type 2E8 and its variants. Given the similarity between the LDLR and 2E8 in terms of specificity, the LDLR/ligand interaction may also have an important electrostatic component